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Systems biology: Large-scale biomedical data mining

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Lars Juhl Jensen
Lars Juhl Jensen
Technologie
1 von 46
Systems biology Large-scale biomedical data mining Lars Juhl Jensen
association networks
who?
guilt by association
protein networks
Frishman et al., Modern Genome Annotation, 2009
computational predictions
Korbel et al., Nature Biotechnology, 2004
experimental data
Jensen & Bork, Science, 2008
curated knowledge
Letunic & Bork, Trends in Biochemical Sciences, 2008
text mining
Pafilis, O’Donoghue, Jensen et al., Nature Biotechnology, 2009
confidence scores
signaling networks
what?
phosphoproteomics
sequence specificity
Miller, Jensen et al., Science Signaling, 2008
automated pipeline
Miller, Jensen et al., Science Signaling, 2008
cellular context
Linding, Jensen, Ostheimer et al., Cell, 2007
>2x better accuracy
dynamic networks
when?
cell-cycle regulation
microarray time courses
Gauthier et al., Nucleic Acids Research, 2007
protein interactions
temporal network
de Lichtenberg, Jensen et al., Science, 2005
just-in-time assembly
de Lichtenberg, Jensen et al., Cell Cycle, 2007
evolutionary flexibility
Jensen, Jensen, de Lichtenberg et al., Nature, 2006
summary
data mining
specific predictions
systems properties
thank you! NetPhorest – Rune Linding – Martin Lee Miller – Francesca Diella – Claus Jørgensen – Michele Tinti – Lei Li – Marilyn Hsiung – Sirlester A. Parker – Jennifer Bordeaux – Thomas Sicheritz-Pontén – Marina Olhovsky – Adrian Pasculescu – Jes Alexander – Stefan Knapp – Nikolaj Blom – Peer Bork – Shawn Li – Gianni Cesareni – Tony Pawson – Benjamin E. Turk – Michael B. Yaffe – Søren Brunak STRING – Christian von Mering – Damian Szklarczyk – Michael Kuhn – Manuel Stark – Samuel Chaffron – Chris Creevey – Jean Muller – Tobias Doerks – Philippe Julien – Alexander Roth – Milan Simonovic – Jan Korbel – Berend Snel – Martijn Huynen – Peer Bork Reflect – Sune Frankild – Heiko Horn – Evangelos Pafilis – Michael Kuhn – Nigel Brown – Reinhardt Schneider – Sean O’Donoghue NetworKIN – Rune Linding – Heiko Horn – Gerard Ostheimer – Martin Lee Miller – Francesca Diella – Karen Colwill – Jing Jin – Pavel Metalnikov – Vivian Nguyen – Adrian Pasculescu – Jin Gyoon Park – Leona D. Samson – Rob Russell – Peer Bork – Michael Yaffe – Tony Pawson Cyclebase – Ulrik de Lichtenberg – Thomas Skøt Jensen – Nicholas Paul Gauthier – Rasmus Wernersson – Søren Brunak
larsjuhljensen

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Systems biology: Large-scale biomedical data mining

Hinweis der Redaktion

  1. Integration Automation Collaboration
  2. Atlas of human kinases Atlases for phospho-binding proteins Atlases for model organisms Ubiquitination would be welcome